GgaINT0053529 @ galGal3
Intron Retention
Gene
ENSGALG00000012394 | NID2
Description
NA
Coordinates
chr5:60682895-60683415:-
Coord C1 exon
chr5:60683258-60683415
Coord A exon
chr5:60683019-60683257
Coord C2 exon
chr5:60682895-60683018
Length
239 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CTCTTCTTGCTTTTGCCAAGGCA
3' ss Score
4.6
Exon sequences
Seq C1 exon
CAACCTTTACTGGACGGATTGGAATCGAGAAGCACCGAAAATCGAAACTTCCACCGTCAGTGGAGCCAACAGGAGGGTGTTGGTGAACACGGACATCGGGCTGCCCAACGGCCTCACGTTCGACCCCTTCTCCAAGCTGCTGTGTTGGGCAGATGCAG
Seq A exon
GTAACTGCACCGAGGATGGACCGGAGGGCTCCACTAAGTGGGAAAAGCAGCTCCGTCTTTATCCCATTGGTACCTGAGCTCCACTCCATCCCCTTCCTCTGTCCTGGTTGGAAAGACTTTAAGCGTGACTGAGCTGGGGGGATTTGCAGCTTCTGCATCCTTGGGCTGGGAAGCTGCTGCAAAATTAATGGATACGGTGAGTGTGTATTTGTGGTAACCCTCTTCTTGCTTTTGCCAAG
Seq C2 exon
GCACGAAGAAGCTGGAGTGCACGTTCCCTGACGGAGCAGGCAGGCGCATCATACACAACAACCTCAACTACCCCTTCAGCATCATTAGTTACGCCAGTCACTTCTACCACACCGACTGGAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012394:ENSGALT00000020241:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=79.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTTACTGGACGGATTGGA
R:
GTCTCCAGTCGGTGTGGTAGA
Band lengths:
279-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]